Classification of benign and malignant subtypes of breast cancer histopathology imaging using hybrid CNN-LSTM based transfer learning

Publicly available datasets of breast histopathology H&E whole-slide images: A scoping review

Advancements in digital pathology and computing resources have made a significant impact in the field of computational pathology for breast cancer diagnosis and treatment. However, access to high-quality labeled histopathological images of breast cancer is a big challenge that limits the development of accurate and robust deep learning models. In this scoping review, we identified the publicly available datasets of breast H&E-stained whole-slide images (WSIs) that can be used to develop deep learning algorithms. We systematically searched 9 scientific literature databases and 9 research data repositories and found 17 publicly available datasets containing 10 385 H&E WSIs of breast cancer. Moreover, we reported image metadata and characteristics for each dataset to assist researchers in selecting proper datasets for specific tasks in breast cancer computational pathology. In addition, we compiled 2 lists of breast H&E patches and private datasets as supplementary resources for researchers. Notably, only 28% of the included articles utilized multiple datasets, and only 14% used an external validation set, suggesting that the performance of other developed models may be susceptible to overestimation. The TCGA-BRCA was used in 52% of the selected studies. This dataset has a considerable selection bias that can impact the robustness and generalizability of the trained algorithms. There is also a lack of consistent metadata reporting of breast WSI datasets that can be an issue in developing accurate deep learning models, indicating the necessity of establishing explicit guidelines for documenting breast WSI dataset characteristics and metadata.

Smart Biosensor for Breast Cancer Survival Prediction Based on Multi-View Multi-Way Graph Learning

Biosensors play a crucial role in detecting cancer signals by orchestrating a series of intricate biological and physical transduction processes. Among various cancers, breast cancer stands out due to its genetic underpinnings, which trigger uncontrolled cell proliferation, predominantly impacting women, and resulting in significant mortality rates. The utilization of biosensors in predicting survival time becomes paramount in formulating an optimal treatment strategy. However, conventional biosensors employing traditional machine learning methods encounter challenges in preprocessing features for the learning task. Despite the potential of deep learning techniques to automatically extract useful features, they often struggle to effectively leverage the intricate relationships between features and instances. To address this challenge, our study proposes a novel smart biosensor architecture that integrates a multi-view multi-way graph learning (MVMWGL) approach for predicting breast cancer survival time. This innovative approach enables the assimilation of insights from gene interactions and biosensor similarities. By leveraging real-world data, we conducted comprehensive evaluations, and our experimental results unequivocally demonstrate the superiority of the MVMWGL approach over existing methods.

Demographic bias in misdiagnosis by computational pathology models

Despite increasing numbers of regulatory approvals, deep learning-based computational pathology systems often overlook the impact of demographic factors on performance, potentially leading to biases. This concern is all the more important as computational pathology has leveraged large public datasets that underrepresent certain demographic groups. Using publicly available data from The Cancer Genome Atlas and the EBRAINS brain tumor atlas, as well as internal patient data, we show that whole-slide image classification models display marked performance disparities across different demographic groups when used to subtype breast and lung carcinomas and to predict IDH1 mutations in gliomas. For example, when using common modeling approaches, we observed performance gaps (in area under the receiver operating characteristic curve) between white and Black patients of 3.0% for breast cancer subtyping, 10.9% for lung cancer subtyping and 16.0% for IDH1 mutation prediction in gliomas. We found that richer feature representations obtained from self-supervised vision foundation models reduce performance variations between groups. These representations provide improvements upon weaker models even when those weaker models are combined with state-of-the-art bias mitigation strategies and modeling choices. Nevertheless, self-supervised vision foundation models do not fully eliminate these discrepancies, highlighting the continuing need for bias mitigation efforts in computational pathology. Finally, we demonstrate that our results extend to other demographic factors beyond patient race. Given these findings, we encourage regulatory and policy agencies to integrate demographic-stratified evaluation into their assessment guidelines.

Enhancing accessibility for improved diagnosis with modified EfficientNetV2-S and cyclic learning rate strategy in women with disabilities and breast cancer

Breast cancer, a prevalent cancer among women worldwide, necessitates precise and prompt detection for successful treatment. While conventional histopathological examination is the benchmark, it is a lengthy process and prone to variations among different observers. Employing machine learning to automate the diagnosis of breast cancer presents a viable option, striving to improve both precision and speed. Previous studies have primarily focused on applying various machine learning and deep learning models for the classification of breast cancer images. These methodologies leverage convolutional neural networks (CNNs) and other advanced algorithms to differentiate between benign and malignant tumors from histopathological images. Current models, despite their potential, encounter obstacles related to generalizability, computational performance, and managing datasets with imbalances. Additionally, a significant number of these models do not possess the requisite transparency and interpretability, which are vital for medical diagnostic purposes. To address these limitations, our study introduces an advanced machine learning model based on EfficientNetV2. This model incorporates state-of-the-art techniques in image processing and neural network architecture, aiming to improve accuracy, efficiency, and robustness in classification. We employed the EfficientNetV2 model, fine-tuned for the specific task of breast cancer image classification. Our model underwent rigorous training and validation using the BreakHis dataset, which includes diverse histopathological images. Advanced data preprocessing, augmentation techniques, and a cyclical learning rate strategy were implemented to enhance model performance. The introduced model exhibited remarkable efficacy, attaining an accuracy rate of 99.68%, balanced precision and recall as indicated by a significant F1 score, and a considerable Cohen's Kappa value. These indicators highlight the model's proficiency in correctly categorizing histopathological images, surpassing current techniques in reliability and effectiveness. The research emphasizes improved accessibility, catering to individuals with disabilities and the elderly. By enhancing visual representation and interpretability, the proposed approach aims to make strides in inclusive medical image interpretation, ensuring equitable access to diagnostic information.

A machine learning and deep learning-based integrated multi-omics technique for leukemia prediction

In recent years, scientific data on cancer has expanded, providing potential for a better understanding of malignancies and improved tailored care. Advances in Artificial Intelligence (AI) processing power and algorithmic development position Machine Learning (ML) and Deep Learning (DL) as crucial players in predicting Leukemia, a blood cancer, using integrated multi-omics technology. However, realizing these goals demands novel approaches to harness this data deluge. This study introduces a novel Leukemia diagnosis approach, analyzing multi-omics data for accuracy using ML and DL algorithms. ML techniques, including Random Forest (RF), Naive Bayes (NB), Decision Tree (DT), Logistic Regression (LR), Gradient Boosting (GB), and DL methods such as Recurrent Neural Networks (RNN) and Feedforward Neural Networks (FNN) are compared. GB achieved 97 % accuracy in ML, while RNN outperformed by achieving 98 % accuracy in DL. This approach filters unclassified data effectively, demonstrating the significance of DL for leukemia prediction. The testing validation was based on 17 different features such as patient age, sex, mutation type, treatment methods, chromosomes, and others. Our study compares ML and DL techniques and chooses the best technique that gives optimum results. The study emphasizes the implications of high-throughput technology in healthcare, offering improved patient care.

PaCMAP-embedded convolutional neural network for multi-omics data integration

Aims

The multi-omics data integration has emerged as a prominent avenue within the healthcare industry, presenting substantial potential for enhancing predictive models. The main motivation behind this study stems from the imperative need to advance prognostic methodologies in cancer diagnosis, an area where precision is pivotal for effective clinical decision-making. In this context, the present study introduces an innovative methodology that integrates copy number alteration (CNA), DNA methylation, and gene expression data.

Methods

The three omics data were successfully merged into a two-dimensional (2D) map using the PaCMAP dimensionality reduction technique. Utilizing the RGB coloring scheme, a visual representation of the integration was produced utilizing the values of the three omics of each sample. Then, the colored 2D maps were fed into a convolutional neural network (CNN) to forecast the Gleason score.

Results

Our proposed model outperforms the cutting-edge i-SOM-GSN model by integrating multi-omics data and the CNN architecture with an accuracy of 98.89, and AUC of 0.9996.

Conclusion

This study demonstrates the effectiveness of multi-omics data integration in predicting health outcomes. The proposed methodology, combining PaCMAP for dimensionality reduction, RGB coloring for visualization, and CNN for prediction, offers a comprehensive framework for integrating heterogeneous omics data and improving predictive accuracy. These findings contribute to the advancement of personalized medicine and have the potential to aid in clinical decision-making for prostate cancer patients.

Hybrid CNN-LSTM for Predicting Diabetes: A Review

BACKGROUND

Diabetes is a common and deadly chronic disease caused by high blood glucose levels that can cause heart problems, neurological damage, and other illnesses. Through the early detection of diabetes, patients can live healthier lives. Many machine learning and deep learning techniques have been applied for noninvasive diabetes prediction. The results of some studies have shown that the CNN-LSTM method, a combination of CNN and LSTM, has good performance for predicting diabetes compared to other deep learning methods.

METHOD

This paper reviews CNN-LSTM-based studies for diabetes prediction. In the CNNLSTM model, the CNN includes convolution and max pooling layers and is applied for feature extraction. The output of the max-pooling layer was fed into the LSTM layer for classification.

DISCUSSION

The CNN-LSTM model performed well in extracting hidden features and correlations between physiological variables. Thus, it can be used to predict diabetes. The CNNLSTM model, like other deep neural network architectures, faces challenges such as training on large datasets and biological factors. Using large datasets can further improve the accuracy of detection.

CONCLUSION

The CNN-LSTM model is a promising method for diabetes prediction, and compared with other deep-learning models, it is a reliable method.

Deep learning approaches for breast cancer detection in histopathology images: A review

BACKGROUND

Breast cancer is one of the leading causes of death in women worldwide. Histopathology analysis of breast tissue is an essential tool for diagnosing and staging breast cancer. In recent years, there has been a significant increase in research exploring the use of deep-learning approaches for breast cancer detection from histopathology images.

OBJECTIVE

To provide an overview of the current state-of-the-art technologies in automated breast cancer detection in histopathology images using deep learning techniques.

METHODS

This review focuses on the use of deep learning algorithms for the detection and classification of breast cancer from histopathology images. We provide an overview of publicly available histopathology image datasets for breast cancer detection. We also highlight the strengths and weaknesses of these architectures and their performance on different histopathology image datasets. Finally, we discuss the challenges associated with using deep learning techniques for breast cancer detection, including the need for large and diverse datasets and the interpretability of deep learning models.

RESULTS

Deep learning techniques have shown great promise in accurately detecting and classifying breast cancer from histopathology images. Although the accuracy levels vary depending on the specific data set, image pre-processing techniques, and deep learning architecture used, these results highlight the potential of deep learning algorithms in improving the accuracy and efficiency of breast cancer detection from histopathology images.

CONCLUSION

This review has presented a thorough account of the current state-of-the-art techniques for detecting breast cancer using histopathology images. The integration of machine learning and deep learning algorithms has demonstrated promising results in accurately identifying breast cancer from histopathology images. The insights gathered from this review can act as a valuable reference for researchers in this field who are developing diagnostic strategies using histopathology images. Overall, the objective of this review is to spark interest among scholars in this complex field and acquaint them with cutting-edge technologies in breast cancer detection using histopathology images.

Medical image analysis using deep learning algorithms

In the field of medical image analysis within deep learning (DL), the importance of employing advanced DL techniques cannot be overstated. DL has achieved impressive results in various areas, making it particularly noteworthy for medical image analysis in healthcare. The integration of DL with medical image analysis enables real-time analysis of vast and intricate datasets, yielding insights that significantly enhance healthcare outcomes and operational efficiency in the industry. This extensive review of existing literature conducts a thorough examination of the most recent deep learning (DL) approaches designed to address the difficulties faced in medical healthcare, particularly focusing on the use of deep learning algorithms in medical image analysis. Falling all the investigated papers into five different categories in terms of their techniques, we have assessed them according to some critical parameters. Through a systematic categorization of state-of-the-art DL techniques, such as Convolutional Neural Networks (CNNs), Recurrent Neural Networks (RNNs), Generative Adversarial Networks (GANs), Long Short-term Memory (LSTM) models, and hybrid models, this study explores their underlying principles, advantages, limitations, methodologies, simulation environments, and datasets. Based on our results, Python was the most frequent programming language used for implementing the proposed methods in the investigated papers. Notably, the majority of the scrutinized papers were published in 2021, underscoring the contemporaneous nature of the research. Moreover, this review accentuates the forefront advancements in DL techniques and their practical applications within the realm of medical image analysis, while simultaneously addressing the challenges that hinder the widespread implementation of DL in image analysis within the medical healthcare domains. These discerned insights serve as compelling impetuses for future studies aimed at the progressive advancement of image analysis in medical healthcare research. The evaluation metrics employed across the reviewed articles encompass a broad spectrum of features, encompassing accuracy, sensitivity, specificity, F-score, robustness, computational complexity, and generalizability.

Recent advancements in artificial intelligence for breast cancer: Image augmentation, segmentation, diagnosis, and prognosis approaches

Breast cancer is a significant global health burden, with increasing morbidity and mortality worldwide. Early screening and accurate diagnosis are crucial for improving prognosis. Radiographic imaging modalities such as digital mammography (DM), digital breast tomosynthesis (DBT), magnetic resonance imaging (MRI), ultrasound (US), and nuclear medicine techniques, are commonly used for breast cancer assessment. And histopathology (HP) serves as the gold standard for confirming malignancy. Artificial intelligence (AI) technologies show great potential for quantitative representation of medical images to effectively assist in segmentation, diagnosis, and prognosis of breast cancer. In this review, we overview the recent advancements of AI technologies for breast cancer, including 1) improving image quality by data augmentation, 2) fast detection and segmentation of breast lesions and diagnosis of malignancy, 3) biological characterization of the cancer such as staging and subtyping by AI-based classification technologies, 4) prediction of clinical outcomes such as metastasis, treatment response, and survival by integrating multi-omics data. Then, we then summarize large-scale databases available to help train robust, generalizable, and reproducible deep learning models. Furthermore, we conclude the challenges faced by AI in real-world applications, including data curating, model interpretability, and practice regulations. Besides, we expect that clinical implementation of AI will provide important guidance for the patient-tailored management.

Advances in the application of computational pathology in diagnosis, immunomicroenvironment recognition, and immunotherapy evaluation of breast cancer: a narrative review

BACKGROUND

Breast cancer (BC) is a prevalent and highly lethal malignancy affecting women worldwide. Immunotherapy has emerged as a promising therapeutic strategy for BC, offering potential improvements in patient survival. Neoadjuvant therapy (NAT) has also gained significant clinical traction. With the advancement of computer technology, Artificial Intelligence (AI) has been increasingly applied in pathology research, expanding and redefining the scope of the field. This narrative review aims to provide a comprehensive overview of the current literature on the application of computational pathology in BC, specifically focusing on diagnosis, immune microenvironment recognition, and the evaluation of immunotherapy and NAT response.

METHODS

A thorough examination of relevant literature was conducted, focusing on studies investigating the role of computational pathology in BC diagnosis, immune microenvironment recognition, and immunotherapy and NAT assessment.

RESULTS

The application of computational pathology has shown significant potential in BC management. AI-based techniques enable improved diagnosis and classification of BC subtypes, enhance the identification and characterization of the immune microenvironment, and facilitate the evaluation of immunotherapy and NAT response. However, challenges related to data quality, standardization, and algorithm development still need to be addressed.

CONCLUSION

The integration of computational pathology and AI has transformative implications for BC patient care. By leveraging AI-based technologies, clinicians can make more informed decisions in diagnosis, treatment planning, and therapeutic response assessment. Future research should focus on refining AI algorithms, addressing technical challenges, and conducting large-scale clinical validation studies to facilitate the translation of computational pathology into routine clinical practice for BC patients.

Brain Tumor Segmentation Using Deep Learning on MRI Images

Brain tumor (BT) diagnosis is a lengthy process, and great skill and expertise are required from radiologists. As the number of patients has expanded, so has the amount of data to be processed, making previous techniques both costly and ineffective. Many academics have examined a range of reliable and quick techniques for identifying and categorizing BTs. Recently, deep learning (DL) methods have gained popularity for creating computer algorithms that can quickly and reliably diagnose or segment BTs. To identify BTs in medical images, DL permits a pre-trained convolutional neural network (CNN) model. The suggested magnetic resonance imaging (MRI) images of BTs are included in the BT segmentation dataset, which was created as a benchmark for developing and evaluating algorithms for BT segmentation and diagnosis. There are 335 annotated MRI images in the collection. For the purpose of developing and testing BT segmentation and diagnosis algorithms, the brain tumor segmentation (BraTS) dataset was produced. A deep CNN was also utilized in the model-building process for segmenting BTs using the BraTS dataset. To train the model, a categorical cross-entropy loss function and an optimizer, such as Adam, were employed. Finally, the model's output successfully identified and segmented BTs in the dataset, attaining a validation accuracy of 98%.